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General Information

Date of Birth: 14.10.1996
Age: 25
Citizenship: Russian Federation
Place of Birth: Saint-Petersburg, Russia
Place of Living: Saint-Petersburg, Russia
Marital Status: Single

Contact

Skills

R
Python
Bash

Languages

Russian
English
German

Disclaimer

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Last updated on 2022-06-14.

Main

Evgeniia Chikina

I am Bioinformatic Master student who previously graduated from Medical University. I use all of my medical and biological knowledge to combine with the world of computer science. At the moment I have especially good knowledge and skills in analyzing RNA sequencing data. Now and in the future I try to develop and gain knowledge in various aspects of bioinformatics, in particular in such areas as: RNA-seq, epigenetics, multi-omics data analysis.

Education

Master degree, Applied Mathematics and Informatics, Bioinformatics and System Biology

ITMO University

Saint-Petersburg, Russia

Current - 2020

  • Thesis: Metabolic Modules Identification in Single-Cell Data
  • Course Project: Identifying Metabolic Modules in TCGA Datasets
  • Semester Project: Effects of Background RNA Noise on Differential Expression Results in scRNA-seq

Specialist degree (with honors), Pediatrician

Saint-Petersburg State Pediatric Medical University

Saint-Petersburg, Russia

2020 - 2014

  • Pediatrician

Basic Education

School №197 with advanced study of natural sciences (physics, chemistry, biology)

N/A

Saint-Petersburg, Russia

2014 - 2012

  • 10-11th grade
  • Advanced biology, chemistry, start of medical training

Gymnasuim №107

N/A

Saint-Petersburg, Russia

2012 - 2008

  • 6-9th grade

School №118

N/A

Saint-Petersburg, Russia

2008 - 2003

  • 1-5th grade

Research Projects

Metabolic Modules Identification in Single-Cell Data

ITMO University

Saint-Petersburg, Russia

Current - 2021

  • Thesis
  • Main goal of the project is to extend applications of the GAM-clustering tool on the single-cell RNA-seq data. In order to find optimal clustering algorithm performed and analysed multiple clustering strategies for the single-cell RNA-seq data. Used trajectories and gene set enrichment analysis for biological interpretation of the results. Involved in the modification of the tool.

Identifying Metabolic Modules in TCGA Datasets

ITMO University

Saint-Petersburg, Russia

2021

  • Course Project
  • With previousy developed GAM-clustering algorithm analyzed TCGA datasets (LUSC) - bulk RNA-seq data. Identified metabolic modules and performed biological analysis of them. During work was involved in the modification of the tool and testing.

Effects of Background RNA Noise on Differential Expression Results in scRNA-seq

ITMO University

Saint-Petersburg, Russia

2020

  • Performed standart analysis of the single-cell data with Seurat pipeline and integration of multiple samples using SCTransform intgration. With help of DropletUtils R package identified ambient RNA and tried to estimate the impact of it on the differential expression results.

Other Projects

DiveR ShinyApp

Perdana University (Students Project)

N/A

2022

  • DiveR is a graphical user interface (GUI)-based web application hosted on R Shiny for the visualization of DiMA results, a tool designed to facilitate the dissection of protein sequence diversity dynamics for viruses.
  • Modifications of ShinyApp scripts
  • https://github.com/pendy05/DiveR

Conferences

Nationwide scientific forum of students and young scientists with international participation «Student science – 2018»

Saint-Petersburg State Pediatric Medical University

Saint-Petersburg, Russia

2018

  • Research Work: “Study of microbiological landscape and microorganism susceptibility analysis to antibacterial drugs in the neonatal and premature infants intensive care department, cardiac intensive care department and neonatal pathology department for the period from 2014 to 2017”
  • Pharmacology Section: 3d degree diploma

Publications

Gainullina A., Chikina E., Mogilenko D. et al. Open Source ImmGen: network perspective on metabolic diversity among mononuclear phagocytes, bioRxiv 2020.07.15.204388; doi: https://doi.org/10.1101/2020.07.15.204388 (under review)

N/A

N/A

N/A

Achievements

NGSprint Hackaton

NGSchool

Discord, online

2021

  • Project: Data Visualization in Bioinformatics
  • Result: ShinyApp
  • Certificate by the link

Bioinformatics Contest 2021

N/A

Stepik, Online

2021

Annual University Pediatrics Olympiad

Saint-Petersburg State Pediatric Medical University

Saint-Petersburg, Russia

2018

  • 1st degree diploma

Olympiad in Propaedeutics of Children’s Diseases at St. Petersburg State Pediatric Medical University

Saint-Petersburg State Pediatric Medical University

Saint-Petersburg, Russia

2017

  • 2nd degree diploma

Teaching experience

Chemistry/Biology School Tutor

N/A

Saint-Petersburg, Russia

2020 - 2018

  • I was teaching 6-9th grade school students chemistry and biology to increase their knowledge in the field and in some cases helped studying for school exams.

Courses

Introduction to Probability and Data with R (en)

Duke University

Coursera, Online

2022

Molecular biology of the cell (ru)

Bioinformatics Institute

Stepik, Online

2020

Programming in Python (ru)

Bioinformatics Institute

Stepik, Online

2019